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Strontium in PDB 1m6g: Structural Characterisation of the Holliday Junction Tcggtaccga

Protein crystallography data

The structure of Structural Characterisation of the Holliday Junction Tcggtaccga, PDB code: 1m6g was solved by J.H.Thorpe, B.C.Gale, S.C.M.Teixeira, C.J.Cardin, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 34.50 / 1.65
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 64.302, 25.034, 36.778, 90.00, 110.04, 90.00
R / Rfree (%) 21.5 / 29.6

Strontium Binding Sites:

The binding sites of Strontium atom in the Structural Characterisation of the Holliday Junction Tcggtaccga (pdb code 1m6g). This binding sites where shown within 5.0 Angstroms radius around Strontium atom.
In total 5 binding sites of Strontium where determined in the Structural Characterisation of the Holliday Junction Tcggtaccga, PDB code: 1m6g:
Jump to Strontium binding site number: 1; 2; 3; 4; 5;

Strontium binding site 1 out of 5 in 1m6g

Go back to Strontium Binding Sites List in 1m6g
Strontium binding site 1 out of 5 in the Structural Characterisation of the Holliday Junction Tcggtaccga


Mono view


Stereo pair view

A full contact list of Strontium with other atoms in the Sr binding site number 1 of Structural Characterisation of the Holliday Junction Tcggtaccga within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Sr23

b:34.2
occ:1.00
O B:HOH40 2.3 30.4 1.0
O B:HOH125 2.4 33.3 1.0
O B:HOH42 2.6 27.2 1.0
O B:HOH38 2.6 23.8 1.0
O A:HOH41 2.6 30.5 1.0
O B:HOH39 2.7 29.3 1.0
N2 A:DG3 4.4 20.3 1.0
O A:HOH58 4.4 30.3 1.0
N2 A:DG4 4.5 21.3 1.0
O B:HOH78 4.5 29.9 1.0
O2 B:DC18 4.5 20.0 1.0
O A:HOH94 4.7 31.2 1.0
O4' B:DG19 4.8 29.0 1.0
O4' A:DT5 4.9 26.7 1.0
O B:HOH132 4.9 28.9 1.0

Strontium binding site 2 out of 5 in 1m6g

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Strontium binding site 2 out of 5 in the Structural Characterisation of the Holliday Junction Tcggtaccga


Mono view


Stereo pair view

A full contact list of Strontium with other atoms in the Sr binding site number 2 of Structural Characterisation of the Holliday Junction Tcggtaccga within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Sr24

b:42.1
occ:1.00
O B:HOH44 2.5 31.4 1.0
O A:HOH46 2.6 20.6 1.0
O A:HOH87 2.7 35.1 1.0
O B:HOH43 2.7 31.7 1.0
O A:HOH48 2.7 30.4 1.0
O A:HOH45 2.7 37.6 1.0
O B:HOH47 3.0 34.3 1.0
O A:HOH133 4.5 27.0 1.0
O A:HOH80 4.5 31.5 1.0
O2 A:DC2 4.5 20.7 1.0
N2 B:DG19 4.6 18.2 1.0
O4' A:DG3 4.7 30.3 1.0
O4' A:DC2 4.8 26.0 1.0
C4' A:DG3 5.0 32.2 1.0

Strontium binding site 3 out of 5 in 1m6g

Go back to Strontium Binding Sites List in 1m6g
Strontium binding site 3 out of 5 in the Structural Characterisation of the Holliday Junction Tcggtaccga


Mono view


Stereo pair view

A full contact list of Strontium with other atoms in the Sr binding site number 3 of Structural Characterisation of the Holliday Junction Tcggtaccga within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Sr21

b:25.8
occ:1.00
O B:HOH30 2.5 27.5 1.0
O B:HOH26 2.5 24.5 1.0
O B:HOH32 2.6 20.6 1.0
O B:HOH31 2.6 22.3 1.0
O B:HOH27 2.6 17.7 1.0
O B:HOH29 2.6 18.8 1.0
O B:HOH33 2.6 19.4 1.0
O B:HOH28 2.7 24.5 1.0
O B:HOH89 4.5 20.1 1.0
O B:HOH83 4.5 23.9 1.0
O2 B:DC12 4.5 22.9 1.0
O B:HOH88 4.6 27.5 1.0
O4' B:DG13 4.9 21.3 1.0
O4' B:DC12 4.9 20.1 1.0
O B:HOH91 4.9 38.7 1.0

Strontium binding site 4 out of 5 in 1m6g

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Strontium binding site 4 out of 5 in the Structural Characterisation of the Holliday Junction Tcggtaccga


Mono view


Stereo pair view

A full contact list of Strontium with other atoms in the Sr binding site number 4 of Structural Characterisation of the Holliday Junction Tcggtaccga within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Sr22

b:29.0
occ:1.00
O B:HOH86 2.2 27.7 1.0
O B:HOH36 2.5 29.9 1.0
O B:HOH123 2.6 30.6 1.0
O B:HOH35 2.6 28.7 1.0
O B:HOH34 2.6 25.1 1.0
O B:HOH37 2.7 24.2 1.0
O B:HOH124 2.8 34.6 1.0
O B:HOH93 4.2 29.9 1.0
O B:HOH92 4.4 35.4 1.0
N2 B:DG14 4.6 18.5 1.0
N2 B:DG13 4.7 20.3 1.0
O4' B:DT15 4.8 26.9 1.0
O B:HOH130 4.9 29.8 1.0
O B:HOH106 4.9 31.3 1.0
C4' B:DT15 4.9 29.8 1.0

Strontium binding site 5 out of 5 in 1m6g

Go back to Strontium Binding Sites List in 1m6g
Strontium binding site 5 out of 5 in the Structural Characterisation of the Holliday Junction Tcggtaccga


Mono view


Stereo pair view

A full contact list of Strontium with other atoms in the Sr binding site number 5 of Structural Characterisation of the Holliday Junction Tcggtaccga within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Sr25

b:40.1
occ:1.00
O B:HOH51 2.4 33.1 1.0
O B:HOH49 2.4 25.5 1.0
O B:HOH52 2.6 35.9 1.0
O B:HOH50 2.9 35.7 1.0
O B:HOH126 4.5 31.2 1.0
O B:HOH95 4.5 41.3 1.0
OP1 B:DC18 4.9 29.7 1.0
OP2 B:DC18 4.9 28.2 1.0
O B:HOH85 4.9 22.8 1.0
O3' B:DA16 5.0 30.1 1.0
O A:HOH143 5.0 26.1 1.0

Reference:

J.H.Thorpe, B.C.Gale, S.C.M.Teixeira, C.J.Cardin. Conformational and Hydration Effects of Site-Selective Sodium, Calcium and Strontium Ion Binding to the Dna Holliday Junction Structure D(Tcggtaccga)(4) J.Mol.Biol. V. 327 97 2003.
ISSN: ISSN 0022-2836
PubMed: 12614611
DOI: 10.1016/S0022-2836(03)00088-3
Page generated: Wed Dec 16 02:10:36 2020

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